Simple Emboss - Add vertices to a face?
I hope I understand what you need. 
If you are doing square indentations you will usually need to use a grid topology to not get artefacts with the subdivision modifier. This will keep the edge flow align to the edges instead of creating a circular edge flow. Add at least one extra support edge to get flat surfaces around the indentation.

(You should also use smooth faces so you wont get small facetts.)